Towards a pathway definition of Parkinson's disease: a complex disorder with links to cancer, diabetes and inflammation.

Moran LB, Graeber MB - Neurogenetics (2008)

Bottom Line:
Of those, more than 40 genes belong to the highly significantly dysregulated group identified in our dataset.Our study illustrates the value of rigorous clinico-pathological correlation when analysing high-throughput data to make optimal use of the histopathological phenome, or morphonome which currently serves as the key diagnostic reference for most human diseases.The need for systematic human tissue banking, following the highest possible professional and ethical standard to enable sustainability, becomes evident.

ABSTRACTWe have previously established a first whole genome transcriptomic profile of sporadic Parkinson's disease (PD). After extensive brain tissue-based validation combined with cycles of iterative data analysis and by focusing on the most comparable cases of the cohort, we have refined our analysis and established a list of 892 highly dysregulated priority genes that are considered to form the core of the diseased Parkinsonian metabolic network. The substantia nigra pathways, now under scrutiny, contain more than 100 genes whose association with PD is known from the literature. Of those, more than 40 genes belong to the highly significantly dysregulated group identified in our dataset. Apart from the complete list of 892 priority genes, we present pathways revealing PD 'hub' as well as 'peripheral' network genes. The latter include Lewy body components or interact with known PD genes. Biological associations of PD with cancer, diabetes and inflammation are discussed and interactions of the priority genes with several drugs are provided. Our study illustrates the value of rigorous clinico-pathological correlation when analysing high-throughput data to make optimal use of the histopathological phenome, or morphonome which currently serves as the key diagnostic reference for most human diseases. The need for systematic human tissue banking, following the highest possible professional and ethical standard to enable sustainability, becomes evident.

Fig4: Neuronal pathway containing proteins found in Lewy bodies [11]. Priority genes of this study are marked by the blue shading. An online version of this figure with hyperlinks and an overlay of expression values is provided as SI_Figure_6. Symmetrical layout, display by effect (PathwayStudio)

Mentions:
Known components of Lewy bodies and how they relate to the group of priority genes are presented in Fig. 4. The probes for most of these components were found to cluster together in the self-organising map shown in SI_Figure_5. A hyperlinked version of Fig. 4 with expression values overlaid is available online (SI_Figure_6). Interactions of known PD genes with the priority genes of this study are demonstrated in Fig. 5 (SI_Figure_7).Fig. 4

Fig4: Neuronal pathway containing proteins found in Lewy bodies [11]. Priority genes of this study are marked by the blue shading. An online version of this figure with hyperlinks and an overlay of expression values is provided as SI_Figure_6. Symmetrical layout, display by effect (PathwayStudio)

Mentions:
Known components of Lewy bodies and how they relate to the group of priority genes are presented in Fig. 4. The probes for most of these components were found to cluster together in the self-organising map shown in SI_Figure_5. A hyperlinked version of Fig. 4 with expression values overlaid is available online (SI_Figure_6). Interactions of known PD genes with the priority genes of this study are demonstrated in Fig. 5 (SI_Figure_7).Fig. 4

Bottom Line:
Of those, more than 40 genes belong to the highly significantly dysregulated group identified in our dataset.Our study illustrates the value of rigorous clinico-pathological correlation when analysing high-throughput data to make optimal use of the histopathological phenome, or morphonome which currently serves as the key diagnostic reference for most human diseases.The need for systematic human tissue banking, following the highest possible professional and ethical standard to enable sustainability, becomes evident.

ABSTRACTWe have previously established a first whole genome transcriptomic profile of sporadic Parkinson's disease (PD). After extensive brain tissue-based validation combined with cycles of iterative data analysis and by focusing on the most comparable cases of the cohort, we have refined our analysis and established a list of 892 highly dysregulated priority genes that are considered to form the core of the diseased Parkinsonian metabolic network. The substantia nigra pathways, now under scrutiny, contain more than 100 genes whose association with PD is known from the literature. Of those, more than 40 genes belong to the highly significantly dysregulated group identified in our dataset. Apart from the complete list of 892 priority genes, we present pathways revealing PD 'hub' as well as 'peripheral' network genes. The latter include Lewy body components or interact with known PD genes. Biological associations of PD with cancer, diabetes and inflammation are discussed and interactions of the priority genes with several drugs are provided. Our study illustrates the value of rigorous clinico-pathological correlation when analysing high-throughput data to make optimal use of the histopathological phenome, or morphonome which currently serves as the key diagnostic reference for most human diseases. The need for systematic human tissue banking, following the highest possible professional and ethical standard to enable sustainability, becomes evident.